1YGU Hydrolase date Jan 05, 2005
title Crystal Structure Of The Tandem Phosphatase Domains Of Rptp Cd45 With A Ptyr Peptide
authors H.Nam, F.Poy, H.Saito, C.A.Frederick
compound source
Molecule: Leukocyte Common Antigen
Chain: A, B
Fragment: D1 And D2 Ptp Domains
Synonym: L-Ca, Cd45 Antigen, T200
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ptprc, Cd45
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: T7 Promoter
Expression_system_plasmid: Pet

Molecule: Polyoma Middle T Antigen
Chain: C, D
Fragment: Middle T Antigen (Residues 248-251, Sws:P03077)
Engineered: Yes

Synthetic: Yes
Other_details: Polyoma Middle T Antigen Ptyr Peptide
symmetry Space Group: P 1 21 1
R_factor 0.262 R_Free 0.305
length a length b length c angle alpha angle beta angle gamma
84.900 57.920 159.290 90.00 98.66 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand MSE, PTR enzyme Hydrolase E.C. BRENDA
related structures by homologous chain: 1YGR
A, B

Primary referenceStructural basis for the function and regulation of the receptor protein tyrosine phosphatase CD45., Nam HJ, Poy F, Saito H, Frederick CA, J Exp Med 2005 Feb 7;201(3):441-52. Epub 2005 Jan 31. PMID:15684325
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (201 Kb) [Save to disk]
  • Biological Unit Coordinates (1ygu.pdb1.gz) 98 Kb
  • Biological Unit Coordinates (1ygu.pdb2.gz) 99 Kb
  • LPC: Ligand-Protein Contacts for 1YGU
  • CSU: Contacts of Structural Units for 1YGU
  • Likely Quarternary Molecular Structure file(s) for 1YGU
  • Retrieve 1YGU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YGU from S2C, [Save to disk]
  • View 1YGU in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1YGU
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1YGU, from MSDmotif at EBI
  • Fold representative 1ygu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ygu] [1ygu_B] [1ygu_A] [1ygu_C] [1ygu_D]
  • SWISS-PROT database: [P03077] [P08575]
  • Domain organization of [MT_POVMA] [PTPRC_HUMAN] by SWISSPFAM
  • Domain found in 1YGU: [PTPc ] by SMART
  • Other resources with information on 1YGU
  • Community annotation for 1YGU at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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